Hossfeld                Creates a Hossfeld function defining growth.
IPMmatrix-class         Class '"IPMmatrix"'
IPMpack-package         Construction and analysis of integral
                        projection models and associated measures of
                        population growth, structure, perturbations
                        (sensitivities and elasticities), overall
                        population dynamics, age-specific metrics, etc.
IPMpackNews             Show a text file containing package news and
                        updates.
R0Calc                  Calculates net reproductive rate (R0) from an
                        IPM.
addPdfGrowthPic         Adds probability density functions of density
                        function of size or increment given current
                        size and growth to plots.
coerceGrowthObj         Function to coerce growth or survival objects,
                        i.e., impose user-defined parameters
convergeIPM             Iterates until obtaining the number of bins
                        required so that the difference in the chosen
                        measure (lambda, R0, life expectancy of a
                        chosenBin) falls below a chosen tolerance level
convertIncrement        Convert size increment according to time
                        elapsed between censuses.
dataIPMpackCryptantha   Cryptantha Perennial Dataset with Covariates
dataIPMpackHypericum    Hypericum Perennial Dataset
dataIPMpackHypericumCov
                        Hypericum Perennial Dataset with covariates
dataIPMpackSilwood      Silwood Monocarp Dataset
dataIPMpackSuccisa      Succisa pratensis Dataset
dataIPMpackSuccisa2     Succisa pratensis Dataset
diagnosticsPmatrix      Creates a series of diagnostic graphs for a P
                        matrix.
discreteTrans-class     Class '"discreteTrans"'
discreteTransInteger-class
                        Class '"discreteTransInteger"'
elas                    Estimates matrix element sensitivities and
                        elasticities.
envMatrix-class         Class "envMatrix"
fecObj-class            Class "fecObj"
fecObjInteger-class     Class "fecObjInteger"
generateData            Generates random data in the form used by
                        IPMpack.
growSurv                Combines growth and survival.
growth                  Estimates growth probabilities.
growth-methods          ~~ Methods for Function 'growth' ~~
growthCum               Models growth allowing for cumulative bin
                        estimation.
growthCum-methods       ~~ Methods for Function 'growthCum' ~~
growthModelComp         Compares growth and survival objects built from
                        different covariate sets.
growthObj-class         Class "growthObj"
growthObjDeclineVar-class
                        Class "growthObjDeclineVar"
growthObjHossfeld-class
                        Class "growthObjHossfeld"
growthObjIncr-class     Class "growthObjIncr"
growthObjIncrDeclineVar-class
                        Class "growthObjIncrDeclineVar"
growthObjLogIncr-class
                        Class '"growthObjLogIncr"'
growthObjLogIncrDeclineVar-class
                        Class '"growthObjLogIncrDeclineVar"'
growthObjNegBin-class   Class "growthObjNegBin"
growthObjPois-class     Class "growthObjPois"
growthObjTruncIncr-class
                        Class '"growthObjTruncIncr"'
invLogit                Implements a logistic transform.
largeMatrixCalc         Calculates population growth rate (lambda) and
                        stable stage distribution in a computationally
                        efficient way when the number of bins in the
                        IPM is large.
makeClonalObj           Function to build clonal reproduction objects
makeCompoundCmatrix     Builds a compound C matrix.
makeCompoundFmatrix     Builds a compound F matrix.
makeCompoundPmatrix     Builds a compound P matrix.
makeDiscreteTrans       Builds matrix for transitions between discrete
                        (e.g. seedbank, dormant) and continuous (e.g.
                        size) stages.
makeDiscreteTransInteger
                        Builds matrix for transitions between discrete
                        (e.g. seedbank, dormant) and continuous (e.g.
                        size) stages, for situation where continuous
                        variable is an integer (e.g. number of leaves).
makeEnvObj              Builds environmental transition objects.
makeFecObj              Function to build fecundity objects
makeFecObjInteger       Function to build fecundity objects
makeGrowthObj           Function to build growth objects
makeIPMCmatrix          Builds C matrices.
makeIPMFmatrix          Builds F matrices.
makeIPMPmatrix          Builds P matrices.
makeIPMmatrix           Builds IPM matrices.
makeIntegerFmatrix      Builds P and F matrices built off regressions
                        fitted to discrete variables (with probability
                        mass functions rather than probability density
                        functions).
makeOffspringObj        Function to build offspring objects
makeSurvObj             Functions to build survival objects
makegrowthObjHossfeld   Function to make a Hossfeld Growth Object
meanLifeExpect          Calculates the mean life expectancy.
passageTime             Defines passage time to a chosen continuous
                        stage.
picGrow                 Makes pictures of data with growth models
picSurv                 Makes pictures of survival.
plotGrowthModelComp     Plots compared models built with
                        'growthModelComp' and 'survModelComp'.
predictFutureDistribution
                        Predicts continuous (e.g. size) stage
                        distribution in the future giving current
                        population's stage distribution.
sampleIPM               Builds list of IPMs or P matrices from list
                        growth, survival, fecundity and discreteTrans
                        objects. It is helpful when building multiple
                        IPMs for study of parameter uncertainty or
                        stochastic dynamics.
sampleIPMOutput         Gets IPM output from a list of P matrices (only
                        survival and size information) or full IPMs (P
                        matrices + F matrices; the latter include
                        sexual reproduction information).
sampleSequentialIPMs    Makes a list of IPMs where there is a discrete
                        covariate.
sampleVitalRateObj      Calculates growth objects reflecting
                        distribution of parameters from lm or glm.
sensParams              Estimates sensitivity and elasticity of lambda
                        (or R0, or Life expectancy of a chosen bin) to
                        parameters underlying an IPM.
simulateCarlina         Generates random data in the form used by
                        IPMpack based on the population dynamics of
                        Carlina vulgaris
sizeToAge               Estimates size/stage to age relationships
stochGrowthRateManyCov
                        Estimates stochastic population growth rates
                        (lambda_s) or invasion rate with many varying
                        covariates. Alternatively, tracks population
                        structure in a stochastic environment if
                        trackStruct is TRUE.
stochGrowthRateSampleList
                        Estimating the stochastic population growth
                        rate (lambda_s) or invasion rat.
stochPassageTime        Estimates passage time in a discretely varying
                        environment.
surv                    Survival
surv-methods            ~~ Methods for Function surv ~~
survObj-class           Class "survObj"
survObjOverDisp-class   Class '"survObjOverDisp"'
survivorship            Estimates survivorship between two time
                        censuses.
timeToSize              Projects how long it takes to get from a
                        starting distribution to a target continuous
                        stage value.
varLifeExpect           Calculates variation in life expectancy in a
                        discretely stochastic environment.
varPassageTime          Estimates variation in passage time.
wrapHossfeld            Fitting Hossfeld growth function.
